Genomics

As a small facility specialising in microbial samples, ACE Sequencing provides our clients with cutting edge sequencing technologies, using bespoke applications that are best suited to their specific sample types. We have no minimum sample number and are expert in handling low abundance/biomass samples. Custom sequencing enquiries are welcome for any of our services. 

Services

• DNA and RNA sample QC
• DNA extraction
• Quantitative PCR (16S and ITS targets only)
• 16S/18S/ITS amplicon sequencing and community profiling
• TraDIS sequencing
• Shotgun Metagenomics
• Metatranscriptomics and RNA sequencing
• Oxford Nanopore long read sequencing, including both DNA and direct RNA sequencing
• Microbial bioinformatics upon request

Equipment

• Agilent TapeStation for fragment and library analysis, and general RNA and DNA QC
• Qiagen QiaCube extraction robot
• Hamilton and EpMotion liquid handling robots
• Access to Illumina NovaSeq and NextSeq2000 instruments for high throughput sequencing
• Illumina MiSeqi100 – the newest Illumina sequencer on the market
• Oxford Nanopore MinION
• Oxford Nanopore PromethION P2 Solo

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Services

The Australian Genome Research Facility (AGRF) is a key enabler of world-class genomic science and offers a range of services covering all aspects of genomics. Services include:

• Next Generation Sequencing
• Microbial Diversity Profiling
• Genotyping
• Genetic ID
• Long Read Sequencing
• Sanger Sequencing
• Gene Expression
• Bioinformatics
• Nucleic Acid Extraction

Equipment

• Illumina NovaSeq X
• Illumina NextSeq 2000
• Illumina MiSeq
• PacBio Revio I
• Agena MassArray
• Illumina iScan

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Services

The Australian Genome Research Facility (AGRF) and UQ collaborate as a joint Certified Service Provider (CSP) providing Long Read Sequencing using the PacBio Sequel II. The AGRF-UQ PacBio Service expands their capabilities in long-read PacBio® sequencing for generating high-quality genome assemblies, comprehensive transcriptome analyses, and epigenetic information.

As a Certified Service Provider for Single Molecule, Real-Time (SMRT®) Sequencing, this collaboration offers the Sequel II System for affordable, high-throughput studies of microbes, plants and animals, or humans.

Equipment

• PacBio Sequel II

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Genetic Research Services (GRS) provide high-quality genetics services to both UQ and external clients. Backed by a multi-disciplinary team and state-of-the-art equipment, we offer a number of services to support your research needs.

Services

• Rodent genotyping service – We genotype all types of genetic modifications including knockouts, knockins, conditional/floxed, transgenes, SNPs, and CRISPR. The service includes genotyping assay design, DNA extraction, and fluorescent PCR coupled with capillary electrophoresis for highly accurate and sensitive detection of assay products. The genotyping results are analysed by a team of highly experienced research staff.
• Sequencing – We offer high quality, fast, customised services for sequencing clients. We also provide customised solutions and specialised customer support for troubleshooting undesirable results and offer different sequencing dyes (v3.1 and v1.1) for particularly difficult DNA templated eg. hairpin or highly repetitive regions. The Sanger DNA sequencing service is performed on our two 3730 Applied Biosystems capillary electrophoresis machines.
• Fragment services – Our fragment analysis service can speed up your research by analysing your PCR results in a 96-well plate format using high-throughput CE DNA analysers. Fluorescently labelled PCR products from 50-1100 base pairs can be analysed and differences in fragment size as little as 1 base pair can be detected. PCR assays are commonly used to screen for the presence or absence of a variety of genetic features, e.g. insertions, deletions, and SNPs, in a range of organisms.
• Robotics services – We have a number of automated robotic instruments for laboratory work (pre and post PCR), PCR machines and 3730 DNA analysers that may assist you with your high throughput laboratory needs. PCR automation and automated processing reduces the risks of injury, errors, and time associated with the manual processing of high numbers of samples within the laboratory. We can help with automating DNA extraction, PCR, and PCR set up and plate preparation.
• Microsatellite/STR panels – We can optimise microsatellite panels, perform capillary separation, and analyse the results for a variety of animals including, but not limited to, horses, sharks, and manta rays.
• Bacterial 16S testing – Our bacterial 16S test detects the presence of the 16S ribosomal subunit gene which is highly conserved in the genomes of many different strains of bacteria. This test can be useful for applications such as detection of bacterial contamination in faecal samples from germ-free mice in gnotobiotic facilities and for monitoring of sterile environments. Positive 16S results can also be investigated to try and identify the bacterial strain via further 16S sequencing and comparison to online databases.

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Services

Standard library preparation and sequencing services include:

• Illumina (short read) whole transcriptome sequencing for gene expression profiling or deeper transcriptome analysis
• 10x Genomics Chromium Single Cell 3' Gene Expression (including CITE-seq/cell hashing)
• PacBiowhole genome sequencing (long reads and HiFi reads)
• PacBio IsoSeq (full length transcript analysis)

In addition, we are happy to discuss how we can help with your custom sequencing requirements. We have experience with library prep and/or sequencing in the following areas:

• Exome and custom capture
• Illumina sequencing panel
• Amplicon sequencing
• Sequencing customer-prepared libraries
• 10x Genomics Chromium VDJ and Single Cell ATAC assays
• Spatial transcriptomics
• ATAC-seq
• CAGE
• Small RNA
• Hi-C

RNA and DNA quality control:

• Agilent Bioanalyser
• LabChip GX Touch
• Invitrogen Qubit

Equipment

• Illumina NextSeq 500 platform
• Illumina MiSeq platform
• 10X Genomics Chromium Single Cell system
• PacBio Sequel II

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Services

Quantitative 'real time' PCR (qPCR) instruments measure the accumulation of signal generated by fluorescent dyes during each cycle of PCR. SCMB qPCR facility offers a range of instrumentation for qPCR set up, data acquisition and data analysis. We provide training, instruments, labware, reagents and working space, just bring your samples.

Equipment

• AB-QuanStudio 6 qPCR machine: 6-colours (green to far-red), 384-well plate block, QantStudio software. SYBR and TaqMan compatible.
• AB-Viia7 qPCR machine: 6-colours (green to far-red), 384-well plate block, QantStudio software. SYBR and TaqMan compatible.
• QIAGEN –Rotor-Gene-Q qPCR machine: 72-tubes rotor, 2 colours (green 470Ex/510Ex and yellow - 530Ex/557Ex)
• Eppendorf epMotion 5075/5073 pipetting robotics system
• Integra AssistPlus pipetting robot with Viafo and Voyager electronic 8- or 12- channel pipettes
• Laminar-flow hood, multichannel pipets and plastic ware for manual PCR stet up
• QBIT-3 fluorometer for fast and sensitive quantification of DNA, RNA, and Protein

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